Special

MmuINT0049544 @ mm9

Intron Retention

Gene
ENSMUSG00000020231 | Dip2a
Description
DIP2 disco-interacting protein 2 homolog A (Drosophila) [Source:MGI Symbol;Acc:MGI:2385920]
Coordinates
chr10:75745258-75748398:-
Coord C1 exon
chr10:75748271-75748398
Coord A exon
chr10:75745373-75748270
Coord C2 exon
chr10:75745258-75745372
Length
2898 bp
Sequences
Splice sites
5' ss Seq
CAGGTGATG
5' ss Score
5.99
3' ss Seq
TTGCCTGTGTCCCCTCTCAGGAT
3' ss Score
10.61
Exon sequences
Seq C1 exon
GATAACCTGGTCTTCGTCGTGGGCAAGTTGGACGGGCTGATGGTCGTAGGAGTCCGCAGACACAATGCAGATGACATTGTGGCTACTGCCCTGGCTGTGGAGCCCATGAAGTTTGTCTACAGAGGCAG
Seq A exon
GTGATGCATGGGAGACCCCGTACCTGGCTTTCAGATCTCTTCTGTACTCAAAATCTGGGAGGTCTGTGTAGAGTATAAATGTTATGCATACCAGAAAAGTTACACAAAGAAAGAAAAATAATGTTTGCCTCAGAGATAGCAGAGGTAAACTACTTCATTTCCAGCAGTTGTTCAGGTCTCTAAGAGAGCACGGTCTGGCTCTGCAGAGGTGGCTCAGTGGCTCAGACTCACTACTCTTCCAGAGGACCCAGGTTCGATTCCAGCACCTACATGGAAGGTGTAACTCCACTTCCAAGGTATTTAATGCTCTATTCTGGTCTCTTCAGGCACCAGCACACACAAGGTACATAAGATATAAGATATATATGCAGGCAATATATATCATATACTTCATTGCTCCTAGAATAAAAATGTCCTCCCGAGTGTCTACATTGGTTAAGCGAGGACTTTAGACATTCAGGTGTGTTGAGTGGGTGGACGCCTGTGGTTTTGCCTGAGACACCATGGGAAAGGTCTGAGAAGGGATTTTCTCCAGCTCTCCCCGCCTTGAGCTCTTGAGCTCGGAAGAAGCTTGTTTTCTCTTGGCCTGCCCAGCCAACTCCTTTAAAGTCTGATTCTTCTTAAAGGGAATGTACGCCTTTGTTCCTTCAGTGTGGACCTGTGAGCTGGGCCAGGCCCTGCCTTTGAACATGCATTAAAGAAATAGGGAGTCATACCAGGTGGGCACAGACGCCTTCCAGTGGGTGGTCCCTTGAAGTAGAAACTCAGGTGCTGCAGGCAGTATTGTCCACGGGACGCTTGTCAGGGAAATAGACGCTCTGCTTTTAAACAGGTTGCGGAGATTGTGTCTTCATATCCTACTGTCTCCCCCAGGCAAGTACCTTGTTAAGGTCAGGCCAGCCCATGTGACTTACTGTGTGTGGTGGCTTTGTTCTGTGACAGAGGAGCCTGCCTGTCCCTTCCAGGGACTTGAGAAATACAGGGGGAAATGTAGAAAATCAGGTTAAGAAGCTACTCAAGAAGAAGGAACAGAACATTGGAAGGAATTAGGAGAAAGGATGAAAGAGAGGATGGGAGACAGGATGGGAGAAAGGATGAGAGAGAGGATGGAAGACAGGATGGGAGACAGGATGGGAGACAGATTGGGAGAAAGGATGAGAGAGAGGAGGGGAATCCAGGTAGCAGCTCCAGAGGGTGTGCATGGAGCTGAAGAGCTGTCTGAAGAGATGGGAGGCTGGCATACGCTACACTGGAGCCAGCTGTTCTTACTTGGTAAGCTAGGAGGATGCTGAACAGACTTCCAACCACCATGGAACTGATTTGATAAGGCGGCAGAGCATGATGTTTGCACGTTCTAACCTAAATGTTATGGCTCTCCTAGTTTGCTGTGATAAACACCGTGACCAAAAACAACTTGGGGAGCAAATGGTTTTTCTCATGTTACACCTTCATCACACAGGATGCCAGGGCAGGAGTTCAAGGCAGGAACTGAAGCAGAGGCCACAGAAGACGGCTGCTTACTGGCCTGCTGTTCGTGTCTTGTCCAGCTCGCTTTCTTCTATAGCCCAGGACCACATGCCTAGGGATGGTACCACCCACAGTGGGCTAGGCCATCTCCCATCAATCATTATCAACAAAATGTCCAACAGATTTACCCTCTAGCCAGTCAGTTAGAGCACTTTCTCAGTTAGGTTCCCTCTTCCCAGATAGCCTGAGCTGACAAAAACCTAACCAGCACAATGCCTGTCCACATTGTCTCTTAACTTGTAGAACCCCAGGCATATGGATTTCAGAAGTTTTGTTACAATAAATCCCATATTGAAAAACGTGTGGACAAGGTACCAGAGAAGTACATTTAGGAATGCTACAGGAGGACACGCCCAGGAGAAAGACATCGAGAAAGCTTGCTGGATAAAAGAATGTGCTTATGGGCTGTACATGCCACGTTGAGAAATGAGCGGGCATACCAGGTGATAGAGAAGATAGGAGAACTCGTATCTACAGACATTCTAGTATAAGGGATTTGGTGGGGAAAGCCAGCCTCTTAACTTTGACGGGAGAAATCTGTTAGTTTTGATAGTCCAGAACAACAACAACAACAAAAGATGCATGTGCACACACAGGCAGATATATAAACAAGAAAAAGGTGAGTATACACATGTACACACACAAATGCAAGGAAGGAAGGGAGAAAGAGGAGGAGACGTAGGCCATGGGGACGGCTCAGCATATAAAGATACTTACTAGCAAGCTTAGTGACTTGGGTTCAACCCTAGACCTACCTGGAGAACTGGCTTCAGAGCTTGTGTCTAACCTCTGCACATGCTCTAGGAAAATGTGGAAAAGCCCAGTTCTTAAAACATTTTAAAATCTACTTATTTTTATTTTATGTGCACCACATGTATGTGTGGTACCAATGGAGGCCAGAAAAGTGCATCCGATGCCCCTGGGATTGGAGTGACAGGTCATGAGCTACCATGTAGGTGATTGGAATCAAACCCAGATCTTCTGGAAGAGCAGCCATCTGAGCCACTTCTTCAGTCCTTAGAATTTTTTTTTTTTAATGGAAGAGGACTTGTTGAAATTTGTAAAGTTAGGTAGAAGAAACAAGCCTAAAAAGAGCAGTCACAATTAGGATTAATTAACTCATCATTGGAAATATTTGGTCTATTAAGATTTTTTTTTTAATTTGTGCCTAGTACTACAATTGTTATTTTTGTGAGTTGAAACTGTTTTAGCTATAGTACTAGAGAAGAGAATGACAGGCTCCTTGGTGTTTTAAGAATAAGTAGTCTGTCTACTCCACAGAACATTGCGACGTTCATATAGCCTGACTTGAGAGAGGAAGGCTCCGGCACTCTTCCTCTGAGTAGTTACTTTGCCTGTGTCCCCTCTCAG
Seq C2 exon
GATCGCTGTGTTCTCTGTGACTGTGCTGCACGATGACCGGATTGTCTTGGTGGCTGAGCAGCGGCCTGACGCTTCGGAGGAAGACAGCTTCCAATGGATGAGCCGTGTGCTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000020231-Dip2a:NM_001081419:21
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact





	

	
ORF disruption upon sequence inclusion





No structure available

		

			
Features


			

				
Disorder rate (Iupred):
  C1=0.000 A=NA C2=0.000
 
                        

				
Domain overlap (PFAM):

					





						

							
C1:
PF0050123=AMP-binding=PD(3.4=37.2)

							
A:
NA

							
C2:
NO

						

					

				








    
Main Inclusion Isoform:
NA





     
                   









    
Main Skipping Isoform:
ENSMUSP00000101057f706A





     
      









    
Other Inclusion Isoforms:
NA
          









    
Other Skipping Isoforms:
ENSMUSP00000043710, ENSMUSP00000101057, ENSMUSP00000125184
  



Associated events






Other assemblies


mm10




Conservation


Human
(hg38)
chr21:46547043-46549770 
ALTERNATIVE
HsaINT1011085
(DIP2A)
Human
(hg19)
chr21:47966956-47969683 
Rat
(rn6)
chr20:13103931-13105942 
ALTERNATIVE
RnoINT0047709
(Dip2a)
Cow
(bosTau6)
chr1:147943379-147945673 
ALTERNATIVE
BtaINT0049280
(DIP2A)
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
chr7:6921765-6922751 
LOW PSI
GgaINT0051026
(DIP2A)
Zebrafish
(danRer10)
chr9:603741-605200 
LOW PSI
DreINT0057164
(dip2a)
Fruitfly
(dm6)
No conservation detected




Primers PCR

	

		

			
Suggestions for RT-PCR validation

			

				
F: 
No suggested primer sequences

				
R: 
No suggested primer sequences

				
Band lengths: 

			

		

	





	
Functional annotations
(Submit an annotation)

	


There are 0 annotated functions for this event 


		










GENOMIC CONTEXT[edit]












INCLUSION PATTERN[edit]






SPECIAL DATASETS
  • Pre-implantation embryo development
  • Muscular differentiation time course
  • Spermatogenesis cell types
  • Reprogramming of fibroblasts to iPSCs
  • Hematopoietic precursors and cell types






Retrieved from "https://vastdb.crg.eu/wiki/Special:VastDB"